RNA-Seq: differential expression analysis of controls (literature)

Expression comparison

PND7 vs PND8

PND14 vs PND15

PNW8 vs Adult

SessionInfo

## ─ Session info ───────────────────────────────────────────────────────────────
##  setting  value                       
##  version  R version 3.6.1 (2019-07-05)
##  os       Ubuntu 16.04.6 LTS          
##  system   x86_64, linux-gnu           
##  ui       X11                         
##  language (EN)                        
##  collate  de_DE.UTF-8                 
##  ctype    de_DE.UTF-8                 
##  tz       Europe/Zurich               
##  date     2019-12-16                  
## 
## ─ Packages ───────────────────────────────────────────────────────────────────
##  package      * version    date       lib source                        
##  assertthat     0.2.1      2019-03-21 [1] CRAN (R 3.6.1)                
##  backports      1.1.5      2019-10-02 [1] CRAN (R 3.6.1)                
##  bookdown       0.16       2019-11-22 [1] CRAN (R 3.6.1)                
##  callr          3.3.2      2019-09-22 [1] CRAN (R 3.6.1)                
##  cli            1.1.0      2019-03-19 [1] CRAN (R 3.6.1)                
##  colorspace     1.4-1      2019-03-18 [1] CRAN (R 3.6.1)                
##  crayon         1.3.4      2017-09-16 [1] CRAN (R 3.6.1)                
##  crosstalk      1.0.0      2016-12-21 [1] CRAN (R 3.6.1)                
##  data.table     1.12.6     2019-10-18 [1] CRAN (R 3.6.1)                
##  desc           1.2.0      2018-05-01 [1] CRAN (R 3.6.1)                
##  devtools       2.2.1      2019-09-24 [1] CRAN (R 3.6.1)                
##  digest         0.6.23     2019-11-23 [1] CRAN (R 3.6.1)                
##  dplyr          0.8.3      2019-07-04 [1] CRAN (R 3.6.1)                
##  edgeR        * 3.28.0     2019-10-29 [1] Bioconductor                  
##  ellipsis       0.3.0      2019-09-20 [1] CRAN (R 3.6.1)                
##  evaluate       0.14       2019-05-28 [1] CRAN (R 3.6.1)                
##  farver         2.0.1      2019-11-13 [1] CRAN (R 3.6.1)                
##  fastmap        1.0.1      2019-10-08 [1] CRAN (R 3.6.1)                
##  fs             1.3.1      2019-05-06 [1] CRAN (R 3.6.1)                
##  ggplot2      * 3.2.1      2019-08-10 [1] CRAN (R 3.6.1)                
##  glue           1.3.1      2019-03-12 [1] CRAN (R 3.6.1)                
##  gridExtra      2.3        2017-09-09 [1] CRAN (R 3.6.1)                
##  gtable         0.3.0      2019-03-25 [1] CRAN (R 3.6.1)                
##  highr          0.8        2019-03-20 [1] CRAN (R 3.6.1)                
##  htmltools      0.4.0      2019-10-04 [1] CRAN (R 3.6.1)                
##  htmlwidgets    1.5.1      2019-10-08 [1] CRAN (R 3.6.1)                
##  httpuv         1.5.2      2019-09-11 [1] CRAN (R 3.6.1)                
##  httr           1.4.1      2019-08-05 [1] CRAN (R 3.6.1)                
##  jsonlite       1.6        2018-12-07 [1] CRAN (R 3.6.1)                
##  knitr          1.26       2019-11-12 [1] CRAN (R 3.6.1)                
##  later          1.0.0      2019-10-04 [1] CRAN (R 3.6.1)                
##  lattice        0.20-38    2018-11-04 [1] CRAN (R 3.6.1)                
##  lazyeval       0.2.2      2019-03-15 [1] CRAN (R 3.6.1)                
##  lifecycle      0.1.0      2019-08-01 [1] CRAN (R 3.6.1)                
##  limma        * 3.42.0     2019-10-29 [1] Bioconductor                  
##  locfit         1.5-9.1    2013-04-20 [1] CRAN (R 3.6.1)                
##  magrittr       1.5        2014-11-22 [1] CRAN (R 3.6.1)                
##  memoise        1.1.0.9000 2019-11-27 [1] Github (r-lib/memoise@d7782b1)
##  mime           0.7        2019-06-11 [1] CRAN (R 3.6.1)                
##  miniUI         0.1.1.1    2018-05-18 [1] CRAN (R 3.6.1)                
##  munsell        0.5.0      2018-06-12 [1] CRAN (R 3.6.1)                
##  pheatmap     * 1.0.12     2019-01-04 [1] CRAN (R 3.6.1)                
##  pillar         1.4.2      2019-06-29 [1] CRAN (R 3.6.1)                
##  pkgbuild       1.0.6      2019-10-09 [1] CRAN (R 3.6.1)                
##  pkgconfig      2.0.3      2019-09-22 [1] CRAN (R 3.6.1)                
##  pkgload        1.0.2      2018-10-29 [1] CRAN (R 3.6.1)                
##  plotly       * 4.9.1      2019-11-07 [1] CRAN (R 3.6.1)                
##  prettyunits    1.0.2      2015-07-13 [1] CRAN (R 3.6.1)                
##  processx       3.4.1      2019-07-18 [1] CRAN (R 3.6.1)                
##  promises       1.1.0      2019-10-04 [1] CRAN (R 3.6.1)                
##  ps             1.3.0      2018-12-21 [1] CRAN (R 3.6.1)                
##  purrr          0.3.3      2019-10-18 [1] CRAN (R 3.6.1)                
##  questionr      0.7.0      2018-11-26 [1] CRAN (R 3.6.1)                
##  R6             2.4.1      2019-11-12 [1] CRAN (R 3.6.1)                
##  RColorBrewer   1.1-2      2014-12-07 [1] CRAN (R 3.6.1)                
##  Rcpp           1.0.3      2019-11-08 [1] CRAN (R 3.6.1)                
##  remotes        2.1.0      2019-06-24 [1] CRAN (R 3.6.1)                
##  rlang          0.4.2      2019-11-23 [1] CRAN (R 3.6.1)                
##  rmarkdown      1.18       2019-11-27 [1] CRAN (R 3.6.1)                
##  rmdformats     0.3.5      2019-02-19 [1] CRAN (R 3.6.1)                
##  rprojroot      1.3-2      2018-01-03 [1] CRAN (R 3.6.1)                
##  rstudioapi     0.10       2019-03-19 [1] CRAN (R 3.6.1)                
##  scales         1.1.0      2019-11-18 [1] CRAN (R 3.6.1)                
##  sessioninfo    1.1.1      2018-11-05 [1] CRAN (R 3.6.1)                
##  shiny          1.4.0      2019-10-10 [1] CRAN (R 3.6.1)                
##  stringi        1.4.3      2019-03-12 [1] CRAN (R 3.6.1)                
##  stringr        1.4.0      2019-02-10 [1] CRAN (R 3.6.1)                
##  testthat       2.3.1      2019-12-01 [1] CRAN (R 3.6.1)                
##  tibble         2.1.3      2019-06-06 [1] CRAN (R 3.6.1)                
##  tidyr          1.0.0      2019-09-11 [1] CRAN (R 3.6.1)                
##  tidyselect     0.2.5      2018-10-11 [1] CRAN (R 3.6.1)                
##  usethis        1.5.1      2019-07-04 [1] CRAN (R 3.6.1)                
##  vctrs          0.2.0      2019-07-05 [1] CRAN (R 3.6.1)                
##  viridis      * 0.5.1      2018-03-29 [1] CRAN (R 3.6.1)                
##  viridisLite  * 0.3.0      2018-02-01 [1] CRAN (R 3.6.1)                
##  withr          2.1.2      2018-03-15 [1] CRAN (R 3.6.1)                
##  xfun           0.11       2019-11-12 [1] CRAN (R 3.6.1)                
##  xtable         1.8-4      2019-04-21 [1] CRAN (R 3.6.1)                
##  yaml           2.2.0      2018-07-25 [1] CRAN (R 3.6.1)                
##  zeallot        0.1.0      2018-01-28 [1] CRAN (R 3.6.1)                
## 
## [1] /home/ubuntu/R/x86_64-pc-linux-gnu-library/3.6
## [2] /usr/local/lib/R/site-library
## [3] /usr/lib/R/site-library
## [4] /usr/lib/R/library
## [5] /home/ubuntu/softwares/anaconda3/pkgs

Deepak Tanwar

Created on: 2019-12-11
Updated on: 2019-12-16